Locus 5960

Sequence ID X_DroMel_CAF1
Location 15,363,001 – 15,363,121
Length 120
Max. P 0.974015
window9671 window9672

overview

Window 1

Location 15,363,001 – 15,363,098
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 87.63
Mean single sequence MFE -22.82
Consensus MFE -20.40
Energy contribution -20.18
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.60
Structure conservation index 0.89
SVM decision value 0.30
SVM RNA-class probability 0.676482
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15363001 97 - 22224390
UGCAGCUGCUUGGCAGUAUUCUCCUUCGUACAUUUCUAUCUCAAUCUGUCACAGCAGCCAGCUUGAAGUGAAGAUCUUAUCGCUUAUCUCGCCACCG
.((.((((((((((((.............................)))))).)))))).......((((((........)))))).....))..... ( -21.55)
>DroSec_CAF1 12276 89 - 1
UGCAGCUGCUUGGCAGCAUUCUGCUUCUUACAUUUCUGUCUCAAUCUGUCACAGCAGCCAGCUUGAAGUGAAGAUCUUAUCGCUUCUUC--------
.((.((((((((((((.(((..((.............))...))))))))).))))))..))..(((((((........)))))))...-------- ( -25.22)
>DroYak_CAF1 12623 97 - 1
UGUAGCUGCUUGGCAGCAUUCUCCUUCUUACAUUUGUGUCCCAAUCUGUCACAGCAGCCAGCUUGAAGUGAAGAUCUUAUCGCUUAUCUCGCCACCG
....((((((((((((.(((........(((....)))....))))))))).))))))..((..(((((((........)))))..))..))..... ( -21.70)
>consensus
UGCAGCUGCUUGGCAGCAUUCUCCUUCUUACAUUUCUGUCUCAAUCUGUCACAGCAGCCAGCUUGAAGUGAAGAUCUUAUCGCUUAUCUCGCCACCG
.((.((((((((((((.(((......................))))))))).))))))..))...((((((........))))))............ (-20.40 = -20.18 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,363,027 – 15,363,121
Length 94
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 81.01
Mean single sequence MFE -24.20
Consensus MFE -21.49
Energy contribution -21.05
Covariance contribution -0.44
Combinations/Pair 1.09
Mean z-score -1.96
Structure conservation index 0.89
SVM decision value 1.72
SVM RNA-class probability 0.974015
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15363027 94 - 22224390
-----------------AAUUGCACCCUUUUUUUUCACUGUGCAGCUGCUUGGCAGUAUUCUCCUUCGUACAUUUCUAUCUCAAUCUGUCACAGCAGCCAGCUUGAAGUGA
-----------------.................(((((..((.((((((((((((.............................)))))).))))))..))....))))) ( -22.25)
>DroSec_CAF1 12294 93 - 1
-----------------AAUAACACCCCUU-UUUUCACUGUGCAGCUGCUUGGCAGCAUUCUGCUUCUUACAUUUCUGUCUCAAUCUGUCACAGCAGCCAGCUUGAAGUGA
-----------------.............-...(((((..((.((((((((((((.(((..((.............))...))))))))).))))))..))....))))) ( -23.02)
>DroYak_CAF1 12649 111 - 1
UUUGGCGUGCCCUCAAGAAUUACACGCUUUUUUUUCGCUGUGUAGCUGCUUGGCAGCAUUCUCCUUCUUACAUUUGUGUCCCAAUCUGUCACAGCAGCCAGCUUGAAGUGA
...((((((.............))))))..((((..((((....((((((((((((.(((........(((....)))....))))))))).))))))))))..))))... ( -27.32)
>consensus
_________________AAUUACACCCUUUUUUUUCACUGUGCAGCUGCUUGGCAGCAUUCUCCUUCUUACAUUUCUGUCUCAAUCUGUCACAGCAGCCAGCUUGAAGUGA
..................................(((((..((.((((((((((((.(((......................))))))))).))))))..))....))))) (-21.49 = -21.05 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:33 2006